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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Binding site similarity measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Binding Sites are compared using Shaper.
For more information, please see the following publication: Desaphy J. et al. Comparison and Druggability Prediction of protein-Ligand Binding sites from pharmacophore-annotated cavity shapes J. Chem. Inf. Model., 2012, 52(8), pp2287-2299
Binding Sites are considered as similar when the similarity value is greater than 0.44

Reference Protein Data Bank Entry :
PDB IDHETUniprot NameEC Number
3gdvTYR_GLN_PHESerine endoprotease DegS3.4.21.107

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
3gdvTYR_GLN_PHESerine endoprotease DegS3.4.21.1071.000
3gduTYR_ARG_PHESerine endoprotease DegS3.4.21.1070.637
3gcoVAL_TYR_GLN_PHESerine endoprotease DegS3.4.21.1070.516
2q5g1FAPeroxisome proliferator-activated receptor delta/0.467
1y0s331Peroxisome proliferator-activated receptor delta/0.466
2i4pDRHPeroxisome proliferator-activated receptor gamma/0.465
1hdcCBO3-alpha-(or 20-beta)-hydroxysteroid dehydrogenase1.1.1.530.462
2i4zDRHPeroxisome proliferator-activated receptor gamma/0.460
2xlpFADPutative flavin-containing monooxygenase/0.460
4irnFADAnaB/0.457
3i59N6RCRP-like cAMP-activated global transcriptional regulator/0.453
4a4vYFDPeroxisome proliferator-activated receptor gamma/0.451
3flkNAITartrate dehydrogenase/decarboxylase1.1.1.930.449
3g6wGTPUracil phosphoribosyltransferase2.4.2.90.448
3sgtP09Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)/0.448
3a0tADPSensor histidine kinase/0.447
2i4jDRJPeroxisome proliferator-activated receptor gamma/0.446
4dit0KDGlycogen synthase kinase-3 beta2.7.11.260.445
4uyf73BBromodomain-containing protein 2/0.445
1u4dDBQActivated CDC42 kinase 1/0.444
2y46MIVMycinamicin IV hydroxylase/epoxidase/0.444
3el01UNGag-Pol polyprotein3.4.23.160.443
3to6LYS_CMCHistone acetyltransferase ESA1/0.441
3zhqTPPMultifunctional 2-oxoglutarate metabolism enzyme1.2.4.20.441